• Gaussian blur sigma=2, k=20 (pixel metaclusters)
  • z-score cap=3 for consensus hierarchical clustering
  • For each pixel, divide each marker by total (each pixel sums to 1)

Replicate 1

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## Mapping data to SOM
## end fraction
## clustered

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## clustered

## clustered

## clustered

## clustered

Histogram of counts in pixel clusters

Heatmap of pixel clusters x markers

Heatmap of pixel metaclusters x markers

Replicate 2

## [1] 6
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## Mapping data to SOM
## end fraction
## clustered

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## clustered

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## clustered

## clustered

## clustered

## clustered

## clustered

## clustered

## clustered

## clustered

Histogram of counts in pixel clusters

Heatmap of pixel clusters x markers

Heatmap of pixel metaclusters x markers

Replicate 3

## [1] 6
## [1] 7
## [1] 13
## [1] 14
## [1] 15
## [1] 21
## [1] 26
## [1] 27
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## Mapping data to SOM
## end fraction
## clustered

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Histogram of counts in pixel clusters

Heatmap of pixel clusters x markers

Heatmap of pixel metaclusters x markers

Replicate 4

## [1] 6
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## [1] 26
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## Mapping data to SOM
## end fraction
## clustered

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Histogram of counts in pixel clusters

Heatmap of pixel clusters x markers

Heatmap of pixel metaclusters x markers

Replicate 5

## [1] 6
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## [1] 13
## [1] 14
## [1] 15
## [1] 21
## [1] 26
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## Mapping data to SOM
## end fraction
## clustered

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## clustered

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## clustered

## clustered

## clustered

## clustered

## clustered

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Histogram of counts in pixel clusters

Heatmap of pixel clusters x markers

Heatmap of pixel metaclusters x markers